Hi Doug:
But, in the mri_aparc2aseg command, I test with the "--wmparc-dmax 200" option... I put that big value to test it, but I got the image that I sent you...
Sincerely,
Gonzalo Rojas Costa
On Thu, May 30, 2013 at 12:06 PM, Douglas N Greve greve@nmr.mgh.harvard.edu wrote:
It is probably the region that is more than 5mm away from cortex. In the wmparc it should be labeled as wm-lh-unknown
doug
On 05/30/2013 11:27 AM, Gonzalo Rojas Costa wrote:
Hi Doug:
I used the instructions that you told me to get the white matter per each lobule... But, I got the grey colored region (red arrow)... Which neuroanatomical area is ?...
Sincerely,
Gonzalo Rojas Costa
Message: 15 Date: Mon, 27 May 2013 22:41:41 -0400 From: Douglas Greve greve@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] white matter volume per lobe... To: freesurfer@nmr.mgh.harvard.edu Message-ID: 51A41965.6050808@nmr.mgh.harvard.edu Content-Type: text/plain; charset=ISO-8859-1; format=flowed
you will need to run mri_annotation2label and specify the output to be an annotation file instead of a segmentation. Then you will have to run mri_aparc2aseg, specifying your lobes annotation as well as --labelwm (look in the recon-all.log file for an example of how wmparc.mgz is created). Then run mri_segstats (you can also get an example from the recon-all.log file). doug
-- Gonzalo Rojas Costa Laboratory for Advanced Medical Image Processing Department of Radiology Clínica las Condes Lo Fontecilla 441, Las Condes, Santiago, Chile. Tel: 56-2-2105170 Cel: 56-9-97771785 www.clc.cl
-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
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